Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene009513.t1 | XP_003616209.1 | 95.8 | 239 | 8 | 2 | 1 | 239 | 1 | 237 | 4.50E-120 | 440.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene009513.t1 | Q39263 | 49.2 | 183 | 56 | 9 | 89 | 239 | 83 | 260 | 6.7e-32 | 139.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene009513.t1 | G7KFY0 | 95.8 | 239 | 8 | 2 | 1 | 239 | 1 | 237 | 3.2e-120 | 440.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene009513.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene009513.t1 | MTR_5g077370 | 95.816 | 239 | 8 | 2 | 1 | 239 | 1 | 237 | 3.77e-170 | 468 |
| MS.gene009513.t1 | MTR_3g065020 | 58.233 | 249 | 83 | 8 | 1 | 239 | 1 | 238 | 3.11e-85 | 253 |
| MS.gene009513.t1 | MTR_1g033340 | 43.798 | 258 | 111 | 9 | 4 | 239 | 6 | 251 | 4.25e-58 | 185 |
| MS.gene009513.t1 | MTR_2g104900 | 66.234 | 77 | 18 | 3 | 88 | 157 | 80 | 155 | 1.56e-26 | 103 |
| MS.gene009513.t1 | MTR_1g013130 | 32.812 | 256 | 120 | 11 | 14 | 239 | 29 | 262 | 1.83e-24 | 98.2 |
| MS.gene009513.t1 | MTR_1g107055 | 39.583 | 144 | 72 | 5 | 66 | 205 | 41 | 173 | 3.17e-23 | 93.2 |
| MS.gene009513.t1 | MTR_4g006575 | 47.154 | 123 | 54 | 3 | 38 | 158 | 16 | 129 | 3.24e-20 | 85.9 |
| MS.gene009513.t1 | MTR_4g006600 | 47.154 | 123 | 54 | 3 | 38 | 158 | 16 | 129 | 3.24e-20 | 85.9 |
| MS.gene009513.t1 | MTR_3g106230 | 41.045 | 134 | 57 | 5 | 43 | 155 | 22 | 154 | 4.54e-19 | 83.2 |
| MS.gene009513.t1 | MTR_4g128340 | 64.912 | 57 | 17 | 1 | 89 | 145 | 45 | 98 | 2.06e-16 | 74.7 |
| MS.gene009513.t1 | MTR_8g466760 | 47.778 | 90 | 33 | 7 | 89 | 169 | 98 | 182 | 5.62e-13 | 67.4 |
| MS.gene009513.t1 | MTR_7g083210 | 69.697 | 33 | 10 | 0 | 89 | 121 | 39 | 71 | 2.73e-11 | 61.2 |
| MS.gene009513.t1 | MTR_7g086860 | 64.865 | 37 | 13 | 0 | 89 | 125 | 30 | 66 | 3.62e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene009513.t1 | AT1G66140 | 49.180 | 183 | 56 | 9 | 89 | 239 | 83 | 260 | 9.51e-43 | 145 |
| MS.gene009513.t1 | AT1G24625 | 45.562 | 169 | 60 | 10 | 88 | 239 | 56 | 209 | 5.36e-31 | 114 |
| MS.gene009513.t1 | AT1G80730 | 60.227 | 88 | 18 | 2 | 88 | 158 | 65 | 152 | 1.51e-24 | 97.8 |
| MS.gene009513.t1 | AT5G25160 | 46.491 | 114 | 54 | 4 | 82 | 188 | 52 | 165 | 6.92e-24 | 96.3 |
| MS.gene009513.t1 | AT5G10970 | 56.098 | 82 | 29 | 3 | 82 | 158 | 95 | 174 | 7.78e-22 | 91.7 |
| MS.gene009513.t1 | AT5G57520 | 79.487 | 39 | 8 | 0 | 88 | 126 | 49 | 87 | 8.51e-16 | 72.4 |
| MS.gene009513.t1 | AT5G14010 | 69.444 | 36 | 11 | 0 | 89 | 124 | 36 | 71 | 8.83e-13 | 64.7 |
| MS.gene009513.t1 | AT5G01860 | 44.615 | 65 | 31 | 1 | 58 | 122 | 39 | 98 | 5.01e-11 | 60.8 |
| MS.gene009513.t1 | AT1G67030 | 43.038 | 79 | 33 | 3 | 71 | 146 | 18 | 87 | 5.33e-11 | 60.5 |
Find 28 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAATTTGTGATGTTGTAAA+AGG | 0.210221 | 5.3:+62800160 | None:intergenic |
| TCCTCATCTTCCAAGAATAT+TGG | 0.301130 | 5.3:+62799693 | None:intergenic |
| ACAAGAGATTCAAATTCAAT+AGG | 0.312010 | 5.3:-62800077 | MS.gene009513:CDS |
| GTTTCTCACCAACAACAATT+AGG | 0.315395 | 5.3:-62799776 | MS.gene009513:CDS |
| CAAAGTTTCAATGTCAAATC+TGG | 0.316382 | 5.3:+62799558 | None:intergenic |
| CAAGAGATTCAAATTCAATA+GGG | 0.379098 | 5.3:-62800076 | MS.gene009513:CDS |
| TGTTGGATTTCCAATATTCT+TGG | 0.388274 | 5.3:-62799703 | MS.gene009513:CDS |
| GGAATTGTTGCTGCAGCTGC+AGG | 0.399987 | 5.3:+62800014 | None:intergenic |
| GAATTTGAATCTCTTGTTGT+TGG | 0.420518 | 5.3:+62800083 | None:intergenic |
| GCACACTCTTCAATGCACTA+TGG | 0.425583 | 5.3:-62799798 | MS.gene009513:CDS |
| TTCAGTTCTCAAGCTCTTGG+TGG | 0.434858 | 5.3:-62799954 | MS.gene009513:CDS |
| ATTTGACATTGAAACTTTGA+AGG | 0.446905 | 5.3:-62799554 | None:intergenic |
| TATTTGCATGAGAAAACTCT+TGG | 0.472741 | 5.3:+62799993 | None:intergenic |
| TCCAATATTCTTGGAAGATG+AGG | 0.489945 | 5.3:-62799694 | MS.gene009513:CDS |
| TTCGAGCAACAAGGGTGTGT+TGG | 0.505986 | 5.3:-62799720 | MS.gene009513:CDS |
| TTAGCATCTTTACCTTTGCA+TGG | 0.510848 | 5.3:-62799846 | MS.gene009513:CDS |
| TTTCGACAAGAATCCGGGGC+GGG | 0.536078 | 5.3:-62799645 | MS.gene009513:CDS |
| GAGTCAAAGTTAATGTGGCC+AGG | 0.539222 | 5.3:-62799672 | MS.gene009513:CDS |
| CTGTTGAGCACCACCCGCCC+CGG | 0.541347 | 5.3:+62799632 | None:intergenic |
| TTGATACATTAGAATCAACT+TGG | 0.543408 | 5.3:+62800192 | None:intergenic |
| CGACAAGAATCCGGGGCGGG+TGG | 0.543660 | 5.3:-62799642 | MS.gene009513:CDS |
| TGATGAGGCCTAATTGTTGT+TGG | 0.553936 | 5.3:+62799768 | None:intergenic |
| GATTCTTGTCGAAAACTACC+TGG | 0.592240 | 5.3:+62799654 | None:intergenic |
| ATGAGGAGTCAAAGTTAATG+TGG | 0.619143 | 5.3:-62799677 | MS.gene009513:CDS |
| GACCTAAAAGAACCATGCAA+AGG | 0.631354 | 5.3:+62799834 | None:intergenic |
| ATATGAGATTCGAGCAACAA+GGG | 0.654483 | 5.3:-62799728 | MS.gene009513:CDS |
| TATATGAGATTCGAGCAACA+AGG | 0.660520 | 5.3:-62799729 | MS.gene009513:CDS |
| ACAGAATTTCATACTCACTG+AGG | 0.743093 | 5.3:-62799613 | MS.gene009513:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ACAAGAGATTCAAATTCAAT+AGG | - | chr5.3:62799734-62799753 | MS.gene009513:CDS | 25.0% |
| ! | AGAATTTGTGATGTTGTAAA+AGG | + | chr5.3:62799654-62799673 | None:intergenic | 25.0% |
| ! | CAAGAGATTCAAATTCAATA+GGG | - | chr5.3:62799735-62799754 | MS.gene009513:CDS | 25.0% |
| ! | TTGATACATTAGAATCAACT+TGG | + | chr5.3:62799622-62799641 | None:intergenic | 25.0% |
| !! | TTTCTCTTTTATGTGCATTT+TGG | + | chr5.3:62799886-62799905 | None:intergenic | 25.0% |
| CAAAGTTTCAATGTCAAATC+TGG | + | chr5.3:62800256-62800275 | None:intergenic | 30.0% | |
| TATTTGCATGAGAAAACTCT+TGG | + | chr5.3:62799821-62799840 | None:intergenic | 30.0% | |
| TGTTGGATTTCCAATATTCT+TGG | - | chr5.3:62800108-62800127 | MS.gene009513:CDS | 30.0% | |
| ! | GAATTTGAATCTCTTGTTGT+TGG | + | chr5.3:62799731-62799750 | None:intergenic | 30.0% |
| !! | ATGGTTCTTTTAGGTCATTA+GGG | - | chr5.3:62799984-62800003 | MS.gene009513:CDS | 30.0% |
| ACAGAATTTCATACTCACTG+AGG | - | chr5.3:62800198-62800217 | MS.gene009513:CDS | 35.0% | |
| AGCAAAAAGAGCTATGAGAA+TGG | - | chr5.3:62799913-62799932 | MS.gene009513:CDS | 35.0% | |
| ATATGAGATTCGAGCAACAA+GGG | - | chr5.3:62800083-62800102 | MS.gene009513:CDS | 35.0% | |
| ATGAGGAGTCAAAGTTAATG+TGG | - | chr5.3:62800134-62800153 | MS.gene009513:CDS | 35.0% | |
| GCAAAAAGAGCTATGAGAAT+GGG | - | chr5.3:62799914-62799933 | MS.gene009513:CDS | 35.0% | |
| GTTTCTCACCAACAACAATT+AGG | - | chr5.3:62800035-62800054 | MS.gene009513:CDS | 35.0% | |
| TATATGAGATTCGAGCAACA+AGG | - | chr5.3:62800082-62800101 | MS.gene009513:CDS | 35.0% | |
| TCCAATATTCTTGGAAGATG+AGG | - | chr5.3:62800117-62800136 | MS.gene009513:CDS | 35.0% | |
| TCCTCATCTTCCAAGAATAT+TGG | + | chr5.3:62800121-62800140 | None:intergenic | 35.0% | |
| TTAGCATCTTTACCTTTGCA+TGG | - | chr5.3:62799965-62799984 | MS.gene009513:CDS | 35.0% | |
| ! | GATTTTTCTCTGTCTACACA+TGG | + | chr5.3:62800229-62800248 | None:intergenic | 35.0% |
| ! | TACCTTTGCATGGTTCTTTT+AGG | - | chr5.3:62799975-62799994 | MS.gene009513:CDS | 35.0% |
| !! | CATGGTTCTTTTAGGTCATT+AGG | - | chr5.3:62799983-62800002 | MS.gene009513:CDS | 35.0% |
| !! | GTTTTCACTTCATGATGATG+AGG | + | chr5.3:62800061-62800080 | None:intergenic | 35.0% |
| !! | TTTTTCAGTTCTCAAGCTCT+TGG | - | chr5.3:62799854-62799873 | MS.gene009513:CDS | 35.0% |
| GACCTAAAAGAACCATGCAA+AGG | + | chr5.3:62799980-62799999 | None:intergenic | 40.0% | |
| GATTCTTGTCGAAAACTACC+TGG | + | chr5.3:62800160-62800179 | None:intergenic | 40.0% | |
| TGATGAGGCCTAATTGTTGT+TGG | + | chr5.3:62800046-62800065 | None:intergenic | 40.0% | |
| ! | GAATGGGAATGTTTTCTGAC+AGG | - | chr5.3:62799930-62799949 | MS.gene009513:CDS | 40.0% |
| ! | GGTAGTTTTCGACAAGAATC+CGG | - | chr5.3:62800160-62800179 | MS.gene009513:CDS | 40.0% |
| ! | GTAGTTTTCGACAAGAATCC+GGG | - | chr5.3:62800161-62800180 | MS.gene009513:CDS | 40.0% |
| ! | TAGTTTTCGACAAGAATCCG+GGG | - | chr5.3:62800162-62800181 | MS.gene009513:CDS | 40.0% |
| GAGTCAAAGTTAATGTGGCC+AGG | - | chr5.3:62800139-62800158 | MS.gene009513:CDS | 45.0% | |
| GCACACTCTTCAATGCACTA+TGG | - | chr5.3:62800013-62800032 | MS.gene009513:CDS | 45.0% | |
| TTCAGTTCTCAAGCTCTTGG+TGG | - | chr5.3:62799857-62799876 | MS.gene009513:CDS | 45.0% | |
| ! | TTCGAGCAACAAGGGTGTGT+TGG | - | chr5.3:62800091-62800110 | MS.gene009513:CDS | 50.0% |
| ! | TTTTCGACAAGAATCCGGGG+CGG | - | chr5.3:62800165-62800184 | MS.gene009513:CDS | 50.0% |
| GGAATTGTTGCTGCAGCTGC+AGG | + | chr5.3:62799800-62799819 | None:intergenic | 55.0% | |
| TTTCGACAAGAATCCGGGGC+GGG | - | chr5.3:62800166-62800185 | MS.gene009513:CDS | 55.0% | |
| CGACAAGAATCCGGGGCGGG+TGG | - | chr5.3:62800169-62800188 | MS.gene009513:CDS | 70.0% | |
| CTGTTGAGCACCACCCGCCC+CGG | + | chr5.3:62800182-62800201 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 62799557 | 62800276 | 62799557 | ID=MS.gene009513 |
| chr5.3 | mRNA | 62799557 | 62800276 | 62799557 | ID=MS.gene009513.t1;Parent=MS.gene009513 |
| chr5.3 | exon | 62799557 | 62800276 | 62799557 | ID=MS.gene009513.t1.exon1;Parent=MS.gene009513.t1 |
| chr5.3 | CDS | 62799557 | 62800276 | 62799557 | ID=cds.MS.gene009513.t1;Parent=MS.gene009513.t1 |
| Gene Sequence |
| Protein sequence |
